Tag-mediated isolation of yeast mitochondrial ribosome and mass spectrometric identification of its new components

European Journal of Biochemistry

Volumn 269, Issue 21, 2002, Pages 5203-5214

  Gan, Xiang ^a   Kitakawa, Madoka ^a   Yoshino, Ken Ichi ^a   Oshiro, Noriko ^a   Yonezawa, Kazuyoshi ^a   Isono, Katsumi ^a  

^a KOBE UNIVERSITY   (Japan)

Author keywords

Mass spectrometry; Mitochondrial ribosomal proteins; Saccharomyces cerevisiae; Tag assisted purification

Indexed keywords

MULTIDRUG RESISTANCE PROTEIN 4; MULTIDRUG RESISTANCE PROTEIN L1; MULTIDRUG RESISTANCE PROTEIN L22; MULTIDRUG RESISTANCE PROTEIN L50; MULTIDRUG RESISTANCE PROTEIN L51; MULTIDRUG RESISTANCE PROTEIN S16; MULTIDRUG RESISTANCE PROTEIN S17; MULTIDRUG RESISTANCE PROTEIN S35; MULTIDRUG RESISTANCE PROTEIN S8; PROTEIN IMG1; PROTEIN IMG2; PROTEIN SUBUNIT; UNCLASSIFIED DRUG;

ARTICLE; FUNGAL STRAIN; MASS SPECTROMETRY; MITOCHONDRION; NONHUMAN; POLYACRYLAMIDE GEL ELECTROPHORESIS; PREDICTION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN ISOLATION; PROTEIN LOCALIZATION; RIBOSOME; YEAST;

AMINO ACID SEQUENCE; BASE SEQUENCE; MACROMOLECULAR SUBSTANCES; MASS SPECTROMETRY; MITOCHONDRIA; MOLECULAR SEQUENCE DATA; MULTIDRUG RESISTANCE-ASSOCIATED PROTEINS; RIBOSOMAL PROTEINS; RIBOSOMES; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID;

BACTERIA (MICROORGANISMS); SACCHAROMYCES CEREVISIAE; SACCHAROMYCETALES;

EID: 0036428536     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1432-1033.2002.03226.x     Document Type: Article

References (43)

1. de Vries, H. & van der Koogh-Schuuring, R. (1973) Physico-chemical characteristics of isolated 55-S mitochondrial ribosomes from rat-liver. Biochem. Biophys. Res. Commun. 54, 308-314.
2. Faye, G. & Sor, F. (1977) Analysis of mitochondrial ribosomal proteins of Saccharomyces cerevisiae by two dimensional polyacrylamide gel electrophoresis. Mol. Gen. Genet. 155, 27-34.
3. Matthews, D.E., Hessler, R.A., Denslow, N.D., Edwards, J.S. & O'Brien, T.W. (1982) Protein composition of the bovine mitochondrial ribosome. J. Biol. Chem. 257, 8788-8794.
4. Grohmann, L., Graack, H.R., Kruft, V., Choli, T., Goldschmidt-Reisin, S. & Kitakawa, M. (1991) Extended N-terminal sequencing of proteins of the large ribosomal subunit from yeast mitochondria. FEBS Lett. 284, 51-56.
5. Kitakawa, M., Graack, H.R., Grohmann, L., Goldschmidt-Reisin, S., Herfurth, E., Wittmann-Liebold, B., Nishimura, T. & Isono, K. (1997) Identification and characterization of the genes for mitochondrial ribosomal proteins of Saccharomyces cerevisiae. Eur. J. Biochem. 245, 449-456.
6. Grivell, L.A., Artal-Sanz, M., Hakkaart, G., de Jong, L., Nijtmans, L.G., van Oosterum, K., Siep, M. & van der Spek, H. (1999) Mitochondrial assembly in yeast. FEBS Lett. 452, 57-60.
7. McMullin, T.W., Haffter, P. & Fox, T.D. (1990) A novel small-subunit ribosomal protein of yeast mitochondria that interacts functionally with an mRNA-specific translational activator. Mol. Cell. Biol. 10, 4590-4595.
8. Haffter, P., McMullin, T.W. & Fox, T.D. (1991) Functional interactions among two yeast mitochondrial ribosomal proteins and an mRNA-specific translational activator. Genetics 127, 319-326.
9. Green-Willms, N.S., Fox, T.D. & Costanzo, M.C. (1998) Functional interactions between yeast mitochondrial ribosomes and mRNA 5′ untranslated leaders. Mol. Cell. Biol. 18, 1826-1834.
10. Bonnefoy, N., Bsat, N. & Fox, T.D. (2001) Mitochondrial translation of Saccharomyces cerevisiae COX2 mRNA is controlled by the nucleotide sequence specifying the pre-Cox2p leader peptide. Mol. Cell. Biol. 21, 2359-2372.
11. Trotter, P.J., Hagerman, R.A. & Voelker, D.R. (1999) A yeast strain defective in oleic acid utilization has a mutation in the RML2 gene. Biochim. Biophys. Acta. 1438, 223-238.
12. Hagerman, R.A. & Trotter, P.J. (2001) A mutation in the yeast mitochondrial ribosomal protein Rml2p is associated with a defect in catalase gene expression. Mol. Cell. Biol. Res. Commun. 4, 299-306.
13. Saveanu, C., Fromont-Racine, M., Harington, A., Ricard, F., Namane, A. & Jacquier, A. (2001) Identification of 12 new yeast mitochondrial ribosomal proteins including 6 that have no prokaryotic homologues. J. Biol. Chem. 276, 15861-15867.
14. Stevenson, L.F., Kennedy, B.K. & Harlow, E. (2001) A large-scale overexpression screen in Saccharomyces cerevisiae identifies previously uncharacterized cell cycle genes. Proc. Natl Acad. Sci. USA. 98, 3946-3951
15. Winzeler, E.A., Shoemaker, D.D., Astromoff, A., Liang, H., Anderson, K., Andre, B., Bangham, R., Benito, R., Boeke, J.D., Bussey, H. et al. (1999) Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis. Science 285, 901-906.
16. Koc, E.C., Burkhart, W., Blackburn, K., Moseley, A. & Spremulli, L.L. (2001) The small subunit of the mammalian mitochondrial ribosome. Identification of the full complement of ribosomal proteins present. J. Biol. Chem. 276, 19363-19374.
17. Koc, E.C., Burkhart, W., Blackburn, K., Moyer, M.B., Schlatzer, D.M., Moseley, A. & Spremulli, L.L. (2001) The large subunit of the mammalian mitochondrial ribosome. Analysis of the complement of ribosomal proteins present. J. Biol. Chem. 276, 43958-43969.
18. Suzuki, T., Terasaki, M., Takemoto-Hori, C., Hanada, T., Ueda, T., Wada, A. & Watanabe, K. (2001) Structural compensation for the deficit of rRNA with proteins in the mammalian mitochondrial ribosome. Systematic analysis of protein components of the large ribosomal subunit from mammalian mitochondria. J. Biol. Chem. 276, 21724-21736.
19. Suzuki, T., Terasaki, M., Takemoto-Hori, C., Hanada, T., Ueda, T., Wada, A. & Watanabe, K. (2001) Proteomic analysis of the mammalian mitochondrial ribosome. Identification of protein components in the 28 S small subunit. J. Biol. Chem. 276, 33181-33195.
20. Burke, D., Dawson, D. & Strearns, T. (2000) Methods in Yeast Genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York.
21. Graack, H.R., Grohmann, L. & Choli, T. (1988) Mitochondrial ribosomes of yeast: Isolation of individual proteins and N-terminal sequencing. FEBS Lett. 242, 4-8.
22. Lee, C., Levin, A. & Branton, D. (1987) Copper staining: A five-minute protein stain for sodium dodecyl sulfate-polyacrylamide gels. Anal. Biochem. 166, 308-312.
23. Maki, Y., Yoshida, H. & Wada, A. (2000) Two proteins, YfiA and YhbH, associated with resting ribosomes in stationary phase Escherichia coli. Genes Cells 5, 965-974.
24. Graack, H.R. & Wittmann-Liebold, B. (1998) Mitochondrial ribosomal proteins (MRPs) of yeast. Biochem. J. 329, 433-448.
25. Moine, H., Squires, C.L., Ehresmann, B. & Ehresmann, C. (2000) In vivo selection of functional ribosomes with variations in the rRNA-binding site of Escherichia coli ribosomal protein S8: Evolutionary implications. Proc. Natl Acad. Sci. USA 97, 605-610.
26. Tishchenko, S., Nikulin, A., Fomenkova, N., Nevskaya, N., Nikonov, O., Dumas, P., Moine, H., Ehresmann, B., Ehresmann, C., Piendl, W., Lamzin, V., Garber, M. & Nikonov, S. (2001) Detailed analysis of RNA-protein interactions within the ribosomal protein S8-rRNA complex from the archaeon Methanococcus jannaschii. J. Mol. Biol. 311, 311-324.
27. Dabbs, E.R., Hasenbank, R., Kastner, B., Rak, K.H., Wartusch, B. & Stoeffler, G. (1983) Immunological studies of Escherichia coli mutants lacking one or two ribosomal proteins. Mol. Gen. Genet. 192, 301-308.
28. Hughes, T.R., Marton, M.J., Jones, A.R., Roberts, C.J., Stoughton, R., Armour, C.D., Bennett, H.A., Coffey, E., Dai, H., He, Y.D., Kidd, M.J., King, A.M., Meyer, M.R., Slade, D., Lum, P.Y., Stepaniants, S.B., Shoemaker, D.D., Gachotte, D., Chakraburtty, K., Simon, J., Bard, M. & Friend, S.H. (2000) Functional discovery via a compendium of expression profiles. Cell 102, 109-126.
29. Coppee, J.Y., Rieger, K.J., Kaniak, A., di Rago, J.P., Groudinsky, O. & Slonimski, P.P. (1996) PetCR46, a gene which is essential for respiration and integrity of the mitochondrial genome. Yeast 12, 577-582.
30. Rieger, K.J., Kaniak, A., Coppee, J.Y., Aljinovic, G., Baudin-Baillieu, A., Orlowska, G., Gromadka, R., Groudinsky, O., Di Rago, J.P. & Slonimski, P.P. (1997) Large-scale phenotypic analysis - The pilot project on yeast chromosome III. Yeast 13, 1547-1562.
31. Kim, J.M., Yoshikawa, H. & Shirahige, K. (2001) A member of the YER057c/yjgf/Uk114 family links isoleucine biosynthesis and intact mitochondria maintenance in Saccharomyces cerevisiae. Genes Cells 6, 507-517.
32. Wiederkehr, A., Meier, K.D. & Riezman, H. (2001) Identification and characterization of Saccharomyces cerevisiae mutants defective in fluid-phase endocytosis. Yeast 18, 759-773.
33. Graack, H.R., Grohmann, L., Kitakawa, M. & Goldschmidt-Reisin, S. (1995) Gene MRP-L4, encoding mitochondrial ribosomal protein YmL4, is indispensable for proper non-respiratory cell functions in yeast. Gene 152, 107-112.
34. Kitakawa, M. & Isono, K. (1991) The mitochondrial ribosomes. Biochimie 73, 813-825.
35. Liu, M. & Spremulli, L. (2000) Interaction of mammalian mitochondrial ribosomes with the inner membrane. J. Biol. Chem. 275, 29400-29406.
36. de Jong, L., Elzinga, S.D., McCammon, M.T., Grivell, L.A. & van der Spek, H. (2000) Increased synthesis and decreased stability of mitochondrial translation products in yeast as a result of loss of mitochondrial (NAD(+)-dependent isocitrate dehydrogenase. FEBS Lett. 483, 62-66.
37. Jeanmougin, F., Thompson, J.D., Gouy, M., Higgins, D.G. & Gibson, T.J. (1998) Multiple sequence alignment with Clustal X. Trends Biochem. Sci. 23, 403-405.
38. Fujita, K., Horie, T. & Isono, K. (2001) Cross-genomic analysis of the translational systems of various organisms. J. Ind. Microbiol. Biotechnol. 27, 163-169.
39. Matsushita, Y., Kitakawa, M. & Isono, K. (1989) Cloning and analysis of the nuclear genes for two mitochondrial ribosomal proteins in yeast. Mol. Gen. Genet. 219, 119-124.
40. Pan, C. & Mason, T.L. (1997) Functional analysis of ribosomal protein L2 in yeast mitochondria. J. Biol. Chem. 272, 8165-8171.
41. Bui, D.M., Jarosch, E. & Schweyen, R.J. (1997) The yeast ORF YDL202w codes for the mitochondrial ribosomal protein YmL11. Curr. Genet. 31, 396-400.
42. Murray, G.L., Bao, W.G., Fukuhara, H., Zuo, X.M., Clark-Walker, G.D. & Chen, X.J. (2000) Disruption of the MRP-L23 gene encoding the mitochondrial ribosomal protein L23 is lethal for Kluyveromyces lactis but not for Saccharomyces cerevisiae. Curr. Genet. 37, 87-93.
43. Entian, K.D., Schuster, T., Hegemann, J.H., Becher, D., Feldmann, H., Gueldener, U., Goetz, R., Hansen, M., Hollenberg, C.P., Jansen, G., Kramer, W., Klein, S., Koetter, P., Kricke, J., Launhardt, H., Mannhaupt, G., Maierl, A., Meyer, P., Mewes, W., Munder, T., Niedenthal, R.K., Ramezani Rad, M., Roehmer, A., Roemer, A., Rose, M., Schaefer, B., Siegler, M.L., Vetter, J., Wilhelm, N., Wolf, K., Zimmermann, F.K., Zollner, A. & Hinnen, A. (1999) Functional analysis of 150 deletion mutants in Saccharomyces cerevisiae by a systematic approach. Mol. General Genet. 262, 683-702.